singledishms

class singledishms[source]

New single dish tool interface to process an MS

Methods Summary

`apply_baseline_table`	For each row of given baseline table, read baseline parameters, construct baseline, then subtract it from the corresponding spectrum in the MS.
`atmcor`	Offline atmospheric correction of calibrated data
`close`	This is used to close sdms tools.
`done`	This is used to close and sdms tools.
`fit_line`	Fit line profile to selected spectra and obtain the best-fit parameter values
`importasap`	Import ASAP Scantable data to MeasurementSet.
`importnro`	Import NOSTAR data to MeasurementSet.
`name`	Returns the name of the attached MeasurementSet.
`open`	Close the current MeasurementSet and open a new MeasurementSet instead.
`set_selection`	Select Measurementset to process
`singledishms`	This is used to construct a singledishms tool instance.
`smooth`	NOTE: currently only Gaussian kernel is supported.
`subtract_baseline`	Fit baseline and subtract it from selected spectra
`subtract_baseline_cspline`	Fit baseline and subtract it from selected spectra
`subtract_baseline_sinusoid`	Fit baseline and subtract it from selected spectra
`subtract_baseline_variable`	Fit baseline and subtract it from selected spectra.

apply_baseline_table(bltable='', datacolumn='data', spw='', updateweight=False, sigmavalue='stddev', outfile='')[source]

For each row of given baseline table, read baseline parameters, construct baseline, then subtract it from the corresponding spectrum in the MS.

Parameters

bltable (string='') - The name of input Baseline Table
datacolumn (string='data') - The name of data column to process (‘data’, ‘float_data’, or ‘corrected’)
spw (variant='') - Spectral Window Ids (0 relative) to select; -1 interpreted as all
updateweight (bool=False) - Update weight based on sigmavalue of residual data
sigmavalue (string='stddev') - sigma value for computing weight
outfile (string='') - The name of output MeasurementSet

Returns

bool

Examples

sdms.open('m100_sd.ms')
sdms.set_selection(field='M100')
sdms.apply_baseline_table('m100_sd.bltable')

atmcor(config='', datacolumn='data', outfile='')[source]

Offline atmospheric correction of calibrated data

Parameters

config (record='') - Configuration for atmospheric correction
datacolumn (string='data') - The name of data column to process (‘data’, ‘float_data’, or ‘corrected’)
outfile (string='') - The name of output MeasurementSet

Returns

bool

close()[source]: This is used to close sdms tools. Note that the data is written to disk and detached from sdms tool. This is a synonym for done.

done()[source]: This is used to close and sdms tools. Note that the data is written to disk and detached from sdms tool. This is a synonym for close.

fit_line(datacolumn='data', spw='', pol='', timebin='', timespan='', polaverage='', fitfunc='gaussian', nfit='0', linefinding=False, threshold=5.0, avg_limit=4, minwidth=4, edge=[0, 0], tempfile='', tempoutfile='')[source]

Fit line profile to selected spectra and obtain the best-fit parameter values

Parameters

datacolumn (string='data') - The name of data column to process (‘data’, ‘float_data’, or ‘corrected’)
spw (variant='') - Spectral Window Ids (0 relative) to select; -1 interpreted as all
pol (variant='') - Select data by polarization(s)
timebin (string='') - Bin width for time averaging
timespan (string='') - Span the timebin across ‘scan’, ‘state’, ‘field’, or a combination of them (e.g., ‘scan,state’)
polaverage (string='') - polarization averaging mode (‘’, ‘stokes’, or ‘geometric’)
fitfunc (string='gaussian') - Function of line profile
nfit (string='0') - Comma-separated numbers of gaussian/lorentzian lines to fit in maskline region. ignored when linefinding=True.
linefinding (bool=False) - do line finding
threshold (float=5.0) - S/N threshold for line finder
avg_limit (int=4) - channel averaging for broad lines in line finding
minwidth (int=4) - the minimum channel width to detect as a line by line finder
edge (intVec=[0, 0]) - channels to drop at beginning and end of spectrum in line finding
tempfile (string='') - The name of temporary file to keep fitting results
tempoutfile (string='') - The name of temporary ms file

Returns

bool

Examples

sdms.open('m100_sd.ms')
sdms.set_selection(field='M100')
sdms.fit_line(fitfunc='gauss',spw='0:1000~2000;4000~5000',nfit=[1,1])

importasap(infile='', outfile='', parallel=False)[source]

Import ASAP Scantable data to MeasurementSet.

Parameters

infile (string='') - The name of input ASAP Scantable
outfile (string='') - The name of output MeasurementSet
parallel (bool=False) - Turn on parallel execution

Returns

bool

importnro(infile='', outfile='', parallel=False)[source]

Import NOSTAR data to MeasurementSet.

Parameters

infile (string='') - The name of input NOSTAR data
outfile (string='') - The name of output MeasurementSet
parallel (bool=False) - Turn on parallel execution

Returns

bool

name()[source]: Returns the name of the attached MeasurementSet.

open()[source]

Close the current MeasurementSet and open a new MeasurementSet instead. The current state of sdms is retained, except for the data selection.

Parameters

ms_name (path='') - New MeasurementSet to be processed

Returns

bool

Examples

sdms.open('m100_sd.ms')

set_selection(spw='', field='', antenna='', timerange='', scan='', observation='', polarization='', beam='', intent='', feed='', taql='', reindex=True)[source]

Select Measurementset to process

Parameters

spw (variant='') - Spectral Window Ids (0 relative) to select; -1 interpreted as all
field (variant='') - Field Ids (0 relative) or Field names (msselection syntax and wilcards are used) to select
antenna (variant='') - Antenna Ids (0 relative) or Antenna names (msselection syntax and wilcards are used) to select
timerange (variant='') - Limit data selected to be within a given time range. Syntax is defined in the msselection link
scan (variant='') - Limit data selected on scan numbers. Syntax is defined in the msselection link
observation (variant='') - Select data by observation ID(s). Syntax is the same as for scan numbers.
polarization (variant='') - Select data by polarization(s)
beam (variant='') - Beam Ids (0 relative) to select; CURRENTLY NOT AVAILABLE!!!
intent (any='') - Select data by intent(s)
feed (any='') - Select data by feed(s)
taql (string='') - For the TAQL experts, flexible data selection using the TAQL syntax
reindex (bool=True) - Re-index indices in subtables based on data selection

Returns

bool

Examples

sdms.set_selection(field='M100', spw='3,5')

singledishms()[source]: This is used to construct a singledishms tool instance. The created instance is just like the default one (’sdms’) but physically independent from it. This is useful when users want to create their own tool instance inside scripts/modules to avoid possible conflicts that may happen when using the default tool instance from various places.

smooth(type='gaussian', width=0.0, datacolumn='data', outfile='')[source]

NOTE: currently only Gaussian kernel is supported.

Parameters

type (string='gaussian') - Smoothing kernel type
width (float=0.0) - Smoothing kernel width
datacolumn (string='data') - The name of data column to process (‘data’, ‘float_data’, or ‘corrected’)
outfile (string='') - The name of output MeasurementSet

Returns

bool

subtract_baseline(datacolumn='data', outfile='', bloutput='', dosubtract=True, spw='', updateweight=False, sigmavalue='stddev', blfunc='poly', order=5, clip_threshold_sigma=3.0, num_fitting_max=1, linefinding=False, threshold=5.0, avg_limit=4, minwidth=4, edge=[0, 0])[source]

Fit baseline and subtract it from selected spectra

Parameters

datacolumn (string='data') - The name of data column to process (‘data’, ‘float_data’, or ‘corrected’)
outfile (string='') - The name of output MeasurementSet
bloutput (string='') - The name(s) of Baseline to be output
dosubtract (bool=True) - Execute baseline subtraction from the input data
spw (variant='') - Spectral Window Ids (0 relative) to select; -1 interpreted as all
updateweight (bool=False) - Update weight based on sigmavalue of residual data
sigmavalue (string='stddev') - sigma value for computing weight
blfunc (string='poly') - baseline function
order (int=5) - polynomial order
clip_threshold_sigma (float=3.0) - threshold for clipping in unit of sigma
num_fitting_max (int=1) - maximum number of recursive clipping
linefinding (bool=False) - do line finding
threshold (float=5.0) - S/N threshold for line finder
avg_limit (int=4) - channel averaging for broad lines in line finding
minwidth (int=4) - the minimum channel width to detect as a line by line finder
edge (intVec=[0, 0]) - channels to drop at beginning and end of spectrum in line finding

Returns

bool

Examples

sdms.open('m100_sd.ms')
sdms.set_selection(field='M100')
sdms.subtract_baseline(order=3,clip_threshold_sigma=5.0,num_fitting_max=6)

subtract_baseline_cspline(datacolumn='data', outfile='', bloutput='', dosubtract=True, spw='', updateweight=False, sigmavalue='stddev', npiece=5, clip_threshold_sigma=3.0, num_fitting_max=1, linefinding=False, threshold=5.0, avg_limit=4, minwidth=4, edge=[0, 0])[source]

Fit baseline and subtract it from selected spectra

Parameters

datacolumn (string='data') - The name of data column to process (‘data’, ‘float_data’, or ‘corrected’)
outfile (string='') - The name of output MeasurementSet
bloutput (string='') - The name(s) of Baseline to be output
dosubtract (bool=True) - Execute baseline subtraction from the input data
spw (variant='') - Spectral Window Ids (0 relative) to select; -1 interpreted as all
updateweight (bool=False) - Update weight based on sigmavalue of residual data
sigmavalue (string='stddev') - sigma value for computing weight
npiece (int=5) - cspline npiece
clip_threshold_sigma (float=3.0) - threshold for clipping in unit of sigma
num_fitting_max (int=1) - maximum number of recursive clipping
linefinding (bool=False) - do line finding
threshold (float=5.0) - S/N threshold for line finder
avg_limit (int=4) - channel averaging for broad lines in line finding
minwidth (int=4) - the minimum channel width to detect as a line by line finder
edge (intVec=[0, 0]) - channels to drop at beginning and end of spectrum in line finding

Returns

bool

Examples

sdms.open('m100_sd.ms')
sdms.set_selection(field='M100')
sdms.subtract_baseline_cspline(npiece=3,clip_threshold_sigma=5.0,num_fitting_max=6)

subtract_baseline_sinusoid(datacolumn='data', outfile='', bloutput='', dosubtract=True, spw='', updateweight=False, sigmavalue='stddev', addwn='0', rejwn='', applyfft=False, fftmethod='fft', fftthresh='3.0', clip_threshold_sigma=3.0, num_fitting_max=1, linefinding=False, threshold=5.0, avg_limit=4, minwidth=4, edge=[0, 0])[source]

Fit baseline and subtract it from selected spectra

Parameters

datacolumn (string='data') - The name of data column to process (‘data’, ‘float_data’, or ‘corrected’)
outfile (string='') - The name of output MeasurementSet
bloutput (string='') - The name(s) of Baseline to be output
dosubtract (bool=True) - Execute baseline subtraction from the input data
spw (variant='') - Spectral Window Ids (0 relative) to select; -1 interpreted as all
updateweight (bool=False) - Update weight based on sigmavalue of residual data
sigmavalue (string='stddev') - sigma value for computing weight
addwn (string='0') - additional wave numbers to use
rejwn (string='') - reject specified wave numbers
applyfft (bool=False) - automatically set wave numbers of sinusoids
fftmethod (string='fft') - method to automatically set wave numbers of sinusoids [‘fft’]
fftthresh (variant='3.0') - threshold to select wave numbers of sinusoids
clip_threshold_sigma (float=3.0) - threshold for clipping in unit of sigma
num_fitting_max (int=1) - maximum number of recursive clipping
linefinding (bool=False) - do line finding
threshold (float=5.0) - S/N threshold for line finder
avg_limit (int=4) - channel averaging for broad lines in line finding
minwidth (int=4) - the minimum channel width to detect as a line by line finder
edge (intVec=[0, 0]) - channels to drop at beginning and end of spectrum in line finding

Returns

bool

Examples

sdms.open('m100_sd.ms')
sdms.set_selection(field='M100')
sdms.subtract_baseline_sinusoid(applyfft=True,clip_threshold_sigma=5.0,num_fitting_max=6)

subtract_baseline_variable(datacolumn='data', outfile='', bloutput='', dosubtract=True, spw='', updateweight=False, sigmavalue='stddev', verbose=False)[source]

Fit baseline and subtract it from selected spectra. Fit parameters for each spectrum are obtained from a text file.

Parameters

datacolumn (string='data') - The name of data column to process (‘data’, ‘float_data’, or ‘corrected’)
outfile (string='') - The name of output MeasurementSet
bloutput (string='') - The name(s) of Baseline to be output
dosubtract (bool=True) - Execute baseline subtraction from the input data
spw (variant='') - Spectral Window Ids (0 relative) to select; -1 interpreted as all
updateweight (bool=False) - Update weight based on sigmavalue of residual data
sigmavalue (string='stddev') - sigma value for computing weight
blparam (path='') - The name of text file that stores fit parameters for each spectrum of selected MS
verbose (bool=False) - Print fitting parameters of each spectrum to logger

Returns

bool

Examples

sdms.open('m100_sd.ms')
sdms.set_selection(field='M100')
sdms.subtract_baseline_variable('m100_fitparam.txt')